Detailed view for PF3D7_0319100

Basic information

TDR Targets ID: 3688
Plasmodium falciparum, E3 ubiquitin-protein ligase RBX1, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.7227 | Length (AA): 107 | MW (Da): 12419 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG1

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF12678   RING-H2 zinc finger domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  
GO:0000151   ubiquitin ligase complex  
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0004842   ubiquitin-protein ligase activity  
GO:0006511   ubiquitin-dependent protein catabolic process  

Structural information

Modbase 3D models:

There are 5 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
10 104 1ldj (B) 19 105 74.00 0 1 1.5 1.14
58 104 2bay (A) 1 49 11.00 0 0.3 0.55 -0.56
10 104 3dpl (R) 19 105 75.00 0 1 1.51755 0.77
49 104 2xeu (A) 3 58 18.00 0.0066 0.34 0.770164 -0.57
53 100 2ep4 (A) 75 122 29.00 0.001 0.3 0.790298 -0.35

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, early schizont, late trophozoite, Oocyst, Ring, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 16 hs, merozoite, sporozoite, early ring, early trophozoite, late ring, late schizont, Sporozoite, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs. Otto TD
Show/Hide expression data references
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_127986)

Species Accession Gene Product
Arabidopsis thaliana AT3G42830   RING-box protein 1
Arabidopsis thaliana AT5G20570   RING-box protein 1
Babesia bovis BBOV_III007590   hypothetical protein
Brugia malayi Bm1_05985   hyperosmotic protein 21
Caenorhabditis elegans CELE_ZK287.5   Protein RBX-1
Cryptosporidium hominis Chro.80112   ring-box 1; RING box protein 1; regulator of cullins 1; RING finger protein; ZYP protein
Cryptosporidium parvum cgd8_930   RBX1 ortholog, RING finger
Dictyostelium discoideum DDB_G0287629   hypothetical protein
Drosophila melanogaster Dmel_CG16988   CG16988 gene product from transcript CG16988-RA
Drosophila melanogaster Dmel_CG16982   CG16982 gene product from transcript CG16982-RC
Echinococcus granulosus EgrG_001017200   RING box protein pip1
Echinococcus granulosus EgrG_000673500   RING box protein
Entamoeba histolytica EHI_151630   RING finger protein, putative
Echinococcus multilocularis EmuJ_001017200   RING box protein pip1
Echinococcus multilocularis EmuJ_000673500   RING box protein
Giardia lamblia GL50803_8241   HRT1-like protein
Homo sapiens 9978   ring-box 1, E3 ubiquitin protein ligase
Leishmania braziliensis LbrM.21.0040   ring-box protein 1, putative
Leishmania donovani LdBPK_210040.1   ring-box protein 1, putative
Leishmania infantum LinJ.21.0040   ring-box protein 1, putative
Leishmania major LmjF.21.0023   ring-box protein 1, putative
Leishmania mexicana LmxM.21.0023   ring-box protein 1, putative
Loa Loa (eye worm) LOAG_03239   ring-box protein 1
Mus musculus 100043674   predicted gene 9840
Mus musculus ENSMUSG00000022400   ring-box 1
Neospora caninum NCLIV_013420   Anaphase-promoting complex subunit 11, related
Oryza sativa 4326152   Os01g0106800
Plasmodium berghei PBANKA_0806200   E3 ubiquitin-protein ligase RBX1, putative
Plasmodium falciparum PF3D7_0319100   E3 ubiquitin-protein ligase RBX1, putative
Plasmodium knowlesi PKNH_0822400   E3 ubiquitin-protein ligase RBX1, putative
Plasmodium vivax PVX_095280   E3 ubiquitin-protein ligase RBX1, putative
Plasmodium yoelii PY00969   putative ring finger protein
Saccharomyces cerevisiae YOL133W   SCF ubiquitin ligase complex subunit HRT1
Schistosoma japonicum Sjp_0207670   ko:K03868 RING-box protein 1, putative
Schmidtea mediterranea mk4.000758.00   RING-box protein 1
Trypanosoma brucei gambiense Tbg972.10.2190   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.1810   RING-H2 zinc finger, putative
Trypanosoma congolense TcIL3000_10_1530   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506495.9   RING-H2 zinc finger, putative
Trypanosoma cruzi TcCLB.503965.20   RING-H2 zinc finger, putative
Toxoplasma gondii TGME49_213690   ring box protein 1 family protein
Theileria parva TP04_0669   hypothetical protein, conserved
Trichomonas vaginalis TVAG_399840   RING finger, putative

Essentiality

PF3D7_0319100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.1810 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.1810 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.1810 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.1810 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_ZK287.5 Caenorhabditis elegans adult lethal wormbase
CELE_ZK287.5 Caenorhabditis elegans embryonic arrest wormbase
CELE_ZK287.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_ZK287.5 Caenorhabditis elegans larval arrest wormbase
CELE_ZK287.5 Caenorhabditis elegans larval lethal wormbase
CELE_ZK287.5 Caenorhabditis elegans sterile wormbase
YOL133W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0806200 Plasmodium berghei Essential plasmo
TGME49_213690 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

1 literature reference was collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier PF3D7_0319100 (Plasmodium falciparum), E3 ubiquitin-protein ligase RBX1, putative
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